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Table 2 Vast diversity of microorganisms identified in the rhizosphere microbiome of plants

From: Rhizosphere microbiome: revisiting the synergy of plant-microbe interactions

Host plant Dominant members of the rhizosphere microbiome Reference
Oak (Characterized by 16S rRNA gene sequencing) identified 5619 bacterial OTUs (operational taxonomic unit) with 38% Proteobacteria, 24% Acidobacteria, 11% Actinobacteria, and 20% unclassified bacteria Uroz et al. (2010)
Sugarbeet (Characterized by 16S rRNA gene microarray) Mendes et al. (2011)
Detected 33,346 bacterial and archaeal OTUs, of which 39% were Proteobacteria (Gamma- and Betaproteobacteria), 20% were Firmicutes, 9% were Actinobacteria  
Rice (Characterized by 16S rRNA gene sequencing) Edwards et al. (2015)
Bacteroidetes, Firmicutes, Chloroflexi, and Betaproteobacteria (Rhodocyclaceae, Comamonadaceae), Alphaproteobacteria, Deltaproteobacteria  
Sugarcane (Characterized by 16S rRNA gene sequencing) Yeoh et al. (2016)
Betaproteobacteria (Undibacterium, Burkholderia), Alphaproteobacteria (Bradyrhizobium, Rhizobium), Bacteroidetes (Niastella, Chitinophaga), Gammaproteobacteria (Dyella, Frateuria), Actinobacteria (Streptomyces, Cryocola), Chloroflexi and Firmicutes (Bacillus)  
Sugarcane (Characterized by sequencing of 16S and ITS ribosomal RNA genes) de Souza et al. (2016)
Identified 23,811 bacterial OTUs and 11,727 fungal OTUs. Major families were Chitinophagaceae, Rhodospirillaceae, Hyphomicrobiaceae, Burkholderiaceae, Rhizobiaceae, Sphingobacteriaceae, Sphingomonadaceae, Sistotremataceae, Meruliaceae, Ceratocystidaceae, Chaetosphaeriaceae, Glomeraceae  
Oilseed rape (Characterized by RNA stable isotope probing and high-throughput sequencing) Gkarmiri et al. (2017)
Verrucomicrobia, Proteobacteria, Planctomycetes, Acidobacteria, Gemmatimonadetes, Actinobacteria, Flavobacterium, Rhodoplanes, Sphingomonas, Streptomyces, Chloroflexi, Rhizobium  
Arabidopsis thaliana (Characterized by sequencing of the ITS2 region) Urbina et al. (2018)
Ascomycetes (542 OTUs) and Basidiomycetes (145 OTUs) were the abundant phyla, and Archaeorhizomycetes, Leotiomycetes, Dothideomycetes, Eurotiomycetes and Sordariomycetes were the abundant classes  
Canola (Characterized by sequencing of 16S and ITS ribosomal RNA genes) Lay et al. (2018)
Identified 6376 bacterial OTUs, 679 fungal OTUs and 49 archaeal OTUs, including Amycolatopsis sp., Serratia proteamaculans, Pedobacter sp., Arthrobacter sp., Stenotrophomonas sp., Fusarium merismoides, Fusicolla sp.  
Blueberry (Characterized by 16S rRNA and 18S rRNA gene sequencing) Yurgel et al. (2018)
Abundant bacterial classes were Proteobacteria (Alphaproteobacteria and Gammaproteobacteria), Acidobacteria, Actinobacteria, Bacteroidetes, Saprospirae, Chloroflexi, Ktedonobacteria, and Verrucomicrobia Spartobacteria. Fungal taxa identified were Ascomycota, Basidiomycota, Mucoromycota, Glomeromycota, and Chytridiomycota